Clonal analysis of functional genomic assays and compositions for practicing same

Abstract

Methods of clonal analysis of functional genomic assays are provided. Aspects of the invention include transducing a population of target cells with a packaged viral effector library made up of a plurality of effector construct subsets, wherein each effector construct subset of the library includes a plurality of effector constructs having a common effector cassette linked to a distinct clonal barcode. Inclusion of distinct clonal barcodes in the effector construct subset allows for determination of the clonal representation of an effector construct subset in transduced target cells that exhibit a specific phenotype. Aspects of the invention further include compositions, e.g., libraries and components thereof, which find use in practicing the methods.

Description

CROSS-REFERENCE TO RELATED APPLICATION[0001]Pursuant to 35 U.S.C. §119(e), this application claims priority to U.S. Provisional Application Ser. No. 61 / 644,324 filed on May 8, 2012, the disclosure of which is herein incorporated by reference.INTRODUCTION[0002]As a result of various genome-wide sequencing projects such as the Human Genome Project, researchers now know the sequence of many human genes. However, there is an urgent need to develop tools to uncover the function(s) of each of these genes. Importantly, functional genomic assays will speed up the discovery and validation of drug targets.[0003]Several technologies have been developed for studying the function of genes, where such studies may be collectively referred to as functional genomic assays and are based on the selective inactivation or activation of gene products, both in vitro and in vivo. Effectors that can be used to target gene products include, but are not limited to: catalytic RNAs, such as antisense RNAs, ribo...

AI Technical Summary

Benefits of technology

[0002]As a result of various genome-wide sequencing projects such as the Human Genome Project, researchers now know the sequence of many human genes. However, there is an urgent need to develop tools to uncover the function(s) of each of these genes. Importantly, functional genomic assays will speed up the discovery and validation of drug targets.

Problems solved by technology

Currently, RNAi gene function analysis studies are mainly limited by the complexity of cell-based phenotypic responses.

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